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Articles by Genomic Sciences
iCAVE: an open source tool for immersive 3D visualization of complex biomolecular interaction networks
AbstractVisualizations of biomolecular networks assist in systems-level data exploration in myriad cellular processes in health and disease. While these networks are increasingly informed by data generated from high-throughout (HT) experiments, current tools do not adequately scale with concomitant increase in their size and complexity.
Cbx8 Acts Non-canonically with Wdr5 to Promote Mammary Tumorigenesis
Cbx8 Is Required for Tumor Growth In Vivo and Correlates with Poor Survival To further understand the role of Cbx8 in promoting tumorigenesis, we conducted transcriptional profiling by RNA-seq. By comparing mRNA expression between control and Cbx8 knockdown MMTV-Myc cells, we found 188 genes upregulated (“Cbx8 KD up”) and 259 genes downregulated (“Cbx8 KD down”) with greater than 2-fold change (Figure 4Figure 4A; Table S1x Download (3.86 MB ) Table S1.
Epigenome-wide association study links site-specific DNA methylation changes with cow’s milk allergy
Publication HistoryPublished Online: April 25, 2016Accepted: January 29, 2016; Received in revised form: December 8, 2015; Received: September 25, 2015;
Dysregulation of miRNA-9 in a Subset of Schizophrenia Patient-Derived Neural Progenitor Cells
Decreased miR-9 Activity Is Specific to SZ NPCs and Not Detected in SZ hiPSC Neurons Effect of Stable miR-9 Overexpression on the Proteome Using unbiased miRNA expression analysis, we report decreased miR-9 levels in a subset of SZ NPCs from two independent SZ patient cohorts (totaling 14 SZ patients and 16 controls) reprogrammed and differentiated independently and using different methodologies.
Expansion and Activation of CD103+ Dendritic Cell Progenitors at the Tumor Site Enhances Tumor Responses to Therapeutic PD-L1 and BRAF Inhibition
Figure 5Therapeutic Immunity Induced by FL-pIC Combined Therapy Requires CD103+ DCs and Type I IFN(A and B) Tomato+Braf-mutant-tumor mice were treated as described in Figure S4 B. Two days after the end of treatment, tumors were harvested and frozen.(A) Representative confocal images of CD3+ T cells (green) infiltrating tumors from the indicated treatment groups.(B) CD3+ T cell density was quantified from confocal images with Cell Profiler software.
Pentosan Polysulfate: Oral Versus Subcutaneous Injection in Mucopolysaccharidosis Type I Dogs
We previously demonstrated the therapeutic benefits of pentosan polysulfate (PPS) in a rat model of mucopolysaccharidosis (MPS) type VI. Reduction of inflammation, reduction of glycosaminoglycan (GAG) storage, and improvement in the skeletal phenotype were shown. Herein, we evaluate the long-term safety and therapeutic effects of PPS in a large animal model of a different MPS type, MPS I dogs.
Hypoxia-Like Signatures Induced by BCR-ABL Potentially Alter the Glutamine Uptake for Maintaining Oxidative Phosphorylation
Citation: Sontakke P, Koczula KM, Jaques J, Wierenga ATJ, Brouwers-Vos AZ, Pruis M, et al. (2016) Hypoxia-Like Signatures Induced by BCR-ABL Potentially Alter the Glutamine Uptake for Maintaining Oxidative Phosphorylation. PLoS ONE 11(4): e0153226. doi:10.1371/journal.pone.0153226 Copyright: © 2016 Sontakke et al.
Analyzing the Role of MicroRNAs in Schizophrenia in the Context of Common Genetic Risk Variants
Importance The recent implication of 108 genomic loci in schizophrenia marked a great advancement in our understanding of the disease. Against the background of its polygenic nature there is a necessity to identify how schizophrenia risk genes interplay. As regulators of gene expression, microRNAs (miRNAs) have repeatedly been implicated in schizophrenia etiology.
Early-life gut microbiome composition and milk allergy resolution
To view the full text, please login as a subscribed user or purchase a subscription . Click here to view the full text on ScienceDirect. Gut microbiota may play a role in the natural history of cow’s milk allergy To examine the association between early life gut microbiota and the resolution of cow’s milk allergy We studied 226 children with milk allergy who were enrolled at infancy in the Consortium of Food Allergy (CoFAR) observational study of food allergy.
DNA Methylation: Insights into Human Evolution
Copyright: © 2015 Hernando-Herraez et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited Funding: TMB is supported by ICREA (www.icrea.cat), EMBO YIP (www.embo.org) 2013, MICINN BFU2014-55090-P (www.mecd.gob.es), BFU2015-7116-ERC and BFU2015-6215-ERC.
Dominance of Deleterious Alleles Controls the Response to a Population Bottleneck
Population bottlenecks followed by re-expansions have been common throughout history of many populations. The response of alleles under selection to such demographic perturbations has been a subject of great interest in population genetics. On the basis of theoretical analysis and computer simulations, we suggest that this response qualitatively depends on dominance.
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